☰ Navigation Tabs
Engineered catalytic domain of protein tyrosine phosphatase HPTPbeta.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2H02
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.2 298 20% PEG 8000, 220 mM MgCl2, 1% BME, 0.1% BOG, 5mM DTT, 180 mM Nh4OAc, pH 8.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.42 49.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.06 α = 90 b = 70.714 β = 90 c = 118.455 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray CCD MARRESEARCH 2005-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.3 33.88 72.6 0.04 15.32 1.2 59896 59896
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.3 1.4 69.2 0.35 2.85 0.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2H02 1.3 33.88 59895 56897 2998 72.63 0.136 0.13376 0.1329 0.17885 0.1777 RANDOM 11.488
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -0.32 -0.4 0.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.657 r_dihedral_angle_4_deg 15.791 r_sphericity_free 14.431 r_dihedral_angle_3_deg 14.05 r_dihedral_angle_1_deg 8.876 r_scangle_it 5.809 r_sphericity_bonded 5.574 r_scbond_it 4.727 r_mcangle_it 3.291 r_mcbond_it 2.837
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.657 r_dihedral_angle_4_deg 15.791 r_sphericity_free 14.431 r_dihedral_angle_3_deg 14.05 r_dihedral_angle_1_deg 8.876 r_scangle_it 5.809 r_sphericity_bonded 5.574 r_scbond_it 4.727 r_mcangle_it 3.291 r_mcbond_it 2.837 r_rigid_bond_restr 2.461 r_angle_refined_deg 1.232 r_mcbond_other 1.224 r_angle_other_deg 0.7 r_xyhbond_nbd_refined 0.324 r_symmetry_vdw_other 0.316 r_symmetry_vdw_refined 0.272 r_nbd_refined 0.25 r_nbd_other 0.24 r_nbtor_refined 0.187 r_symmetry_hbond_refined 0.131 r_nbtor_other 0.09 r_chiral_restr 0.088 r_xyhbond_nbd_other 0.068 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2629 Nucleic Acid Atoms Solvent Atoms 362 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection HKL-2000 data scaling AMoRE phasing